ArticleMethods in molecular biology (Clifton, N.J.)2022
Scripting Analyses of Genomes in Ensembl Plants.
Article in Methods in molecular biology (Clifton, N.J.), 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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Who cites it
14 citing papers in PubMed.
- Artificial intelligence in plant salt stress research: from predictive models to multi-omics integration.Journal of experimental botany · 2026Review
- Bioinformatics in crop research: using genomic data for crop improvement.Frontiers in plant science · 2026Review
- AlloSHP: deconvoluting single homeologous polymorphism for phylogenetic analysis of allopolyploids.Plant methods · 2025Article
- A reproducible ddRAD-seq protocol reveals novel genomic association signatures for fruit-related traits in peach.Plant methods · 2025Article
- Study of Dispersed Repeats in theInternational journal of molecular sciences · 2024Article
- Genome-wide identification and expression analysis of ARF gene family in embryonic development of Korean pine (Pinus koraiensis).BMC plant biology · 2024Article
- AtSNP_TATAdb: Candidate Molecular Markers of Plant Advantages Related to Single Nucleotide Polymorphisms within Proximal Promoters ofInternational journal of molecular sciences · 2024Article
- Genetic control of root/shoot biomass partitioning in barley seedlings.Frontiers in plant science · 2024Article
- Comprehensive Analysis of the Catalase (International journal of molecular sciences · 2023Article
- GET_PANGENES: calling pangenes from plant genome alignments confirms presence-absence variation.Genome biology · 2023Article
- Genome-Wide Identification and Expression Analysis of the TCP Gene Family Related to Developmental and Abiotic Stress in Ginger.Plants (Basel, Switzerland) · 2023Article
- Genome-wide characterization ofFrontiers in plant science · 2023Article
- Genome-wide dissection of AT-hook motif nuclear-localized gene family and their expression profiling for drought and salt stress in rice (Frontiers in plant science · 2023Article
- K-mer counting and curated libraries drive efficient annotation of repeats in plant genomes.The plant genome · 2021Article
Corrections and comments
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Authors and funding
8 authors.
Funding
Abstract
Ensembl Plants ( http://plants.ensembl.org ) offers genome-scale information for plants, with four releases per year. As of release 47 (April 2020) it features 79 species and includes genome sequence, gene models, and functional annotation. Comparative analyses help reconstruct the evolutionary history of gene families, genomes, and components of polyploid genomes. Some species have gene expression baseline reports or variation across genotypes. While the data can be accessed through the Ensembl genome browser, here we review specifically how our plant genomes can be interrogated programmatically and the data downloaded in bulk. These access routes are generally consistent across Ensembl for other non-plant species, including plant pathogens, pests, and pollinators.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.